Nektar::UnsteadyReactionDiffusion Class Reference

#include <UnsteadyReactionDiffusion.h>

Inheritance diagram for Nektar::UnsteadyReactionDiffusion:

Public Member Functions
virtual	~UnsteadyReactionDiffusion ()
	Destructor. More...
Public Member Functions inherited from Nektar::SolverUtils::UnsteadySystem
virtual SOLVER_UTILS_EXPORT	~UnsteadySystem ()
	Destructor. More...
SOLVER_UTILS_EXPORT NekDouble	GetTimeStep (const Array< OneD, const Array< OneD, NekDouble >> &inarray)
	Calculate the larger time-step mantaining the problem stable. More...
Public Member Functions inherited from Nektar::SolverUtils::EquationSystem
virtual SOLVER_UTILS_EXPORT	~EquationSystem ()
	Destructor. More...
SOLVER_UTILS_EXPORT void	SetUpTraceNormals (void)
SOLVER_UTILS_EXPORT void	InitObject ()
	Initialises the members of this object. More...
SOLVER_UTILS_EXPORT void	DoInitialise ()
	Perform any initialisation necessary before solving the problem. More...
SOLVER_UTILS_EXPORT void	DoSolve ()
	Solve the problem. More...
SOLVER_UTILS_EXPORT void	TransCoeffToPhys ()
	Transform from coefficient to physical space. More...
SOLVER_UTILS_EXPORT void	TransPhysToCoeff ()
	Transform from physical to coefficient space. More...
SOLVER_UTILS_EXPORT void	Output ()
	Perform output operations after solve. More...
SOLVER_UTILS_EXPORT NekDouble	LinfError (unsigned int field, const Array< OneD, NekDouble > &exactsoln=NullNekDouble1DArray)
	Linf error computation. More...
SOLVER_UTILS_EXPORT std::string	GetSessionName ()
	Get Session name. More...
template<class T >
std::shared_ptr< T >	as ()
SOLVER_UTILS_EXPORT void	ResetSessionName (std::string newname)
	Reset Session name. More...
SOLVER_UTILS_EXPORT LibUtilities::SessionReaderSharedPtr	GetSession ()
	Get Session name. More...
SOLVER_UTILS_EXPORT MultiRegions::ExpListSharedPtr	GetPressure ()
	Get pressure field if available. More...
SOLVER_UTILS_EXPORT void	ExtraFldOutput (std::vector< Array< OneD, NekDouble > > &fieldcoeffs, std::vector< std::string > &variables)
SOLVER_UTILS_EXPORT void	PrintSummary (std::ostream &out)
	Print a summary of parameters and solver characteristics. More...
SOLVER_UTILS_EXPORT void	SetLambda (NekDouble lambda)
	Set parameter m_lambda. More...
SOLVER_UTILS_EXPORT SessionFunctionSharedPtr	GetFunction (std::string name, const MultiRegions::ExpListSharedPtr &field=MultiRegions::NullExpListSharedPtr, bool cache=false)
	Get a SessionFunction by name. More...
SOLVER_UTILS_EXPORT void	SetInitialConditions (NekDouble initialtime=0.0, bool dumpInitialConditions=true, const int domain=0)
	Initialise the data in the dependent fields. More...
SOLVER_UTILS_EXPORT void	EvaluateExactSolution (int field, Array< OneD, NekDouble > &outfield, const NekDouble time)
	Evaluates an exact solution. More...
SOLVER_UTILS_EXPORT NekDouble	L2Error (unsigned int field, const Array< OneD, NekDouble > &exactsoln, bool Normalised=false)
	Compute the L2 error between fields and a given exact solution. More...
SOLVER_UTILS_EXPORT NekDouble	L2Error (unsigned int field, bool Normalised=false)
	Compute the L2 error of the fields. More...
SOLVER_UTILS_EXPORT Array< OneD, NekDouble >	ErrorExtraPoints (unsigned int field)
	Compute error (L2 and L_inf) over an larger set of quadrature points return [L2 Linf]. More...
SOLVER_UTILS_EXPORT void	Checkpoint_Output (const int n)
	Write checkpoint file of m_fields. More...
SOLVER_UTILS_EXPORT void	Checkpoint_Output (const int n, MultiRegions::ExpListSharedPtr &field, std::vector< Array< OneD, NekDouble > > &fieldcoeffs, std::vector< std::string > &variables)
	Write checkpoint file of custom data fields. More...
SOLVER_UTILS_EXPORT void	Checkpoint_BaseFlow (const int n)
	Write base flow file of m_fields. More...
SOLVER_UTILS_EXPORT void	WriteFld (const std::string &outname)
	Write field data to the given filename. More...
SOLVER_UTILS_EXPORT void	WriteFld (const std::string &outname, MultiRegions::ExpListSharedPtr &field, std::vector< Array< OneD, NekDouble > > &fieldcoeffs, std::vector< std::string > &variables)
	Write input fields to the given filename. More...
SOLVER_UTILS_EXPORT void	ImportFld (const std::string &infile, Array< OneD, MultiRegions::ExpListSharedPtr > &pFields)
	Input field data from the given file. More...
SOLVER_UTILS_EXPORT void	ImportFldToMultiDomains (const std::string &infile, Array< OneD, MultiRegions::ExpListSharedPtr > &pFields, const int ndomains)
	Input field data from the given file to multiple domains. More...
SOLVER_UTILS_EXPORT void	ImportFld (const std::string &infile, std::vector< std::string > &fieldStr, Array< OneD, Array< OneD, NekDouble > > &coeffs)
	Output a field. Input field data into array from the given file. More...
SOLVER_UTILS_EXPORT void	ImportFld (const std::string &infile, MultiRegions::ExpListSharedPtr &pField, std::string &pFieldName)
	Output a field. Input field data into ExpList from the given file. More...
SOLVER_UTILS_EXPORT void	SessionSummary (SummaryList &vSummary)
	Write out a session summary. More...
SOLVER_UTILS_EXPORT Array< OneD, MultiRegions::ExpListSharedPtr > &	UpdateFields ()
SOLVER_UTILS_EXPORT LibUtilities::FieldMetaDataMap &	UpdateFieldMetaDataMap ()
	Get hold of FieldInfoMap so it can be updated. More...
SOLVER_UTILS_EXPORT NekDouble	GetFinalTime ()
	Return final time. More...
SOLVER_UTILS_EXPORT int	GetNcoeffs ()
SOLVER_UTILS_EXPORT int	GetNcoeffs (const int eid)
SOLVER_UTILS_EXPORT int	GetNumExpModes ()
SOLVER_UTILS_EXPORT const Array< OneD, int >	GetNumExpModesPerExp ()
SOLVER_UTILS_EXPORT int	GetNvariables ()
SOLVER_UTILS_EXPORT const std::string	GetVariable (unsigned int i)
SOLVER_UTILS_EXPORT int	GetTraceTotPoints ()
SOLVER_UTILS_EXPORT int	GetTraceNpoints ()
SOLVER_UTILS_EXPORT int	GetExpSize ()
SOLVER_UTILS_EXPORT int	GetPhys_Offset (int n)
SOLVER_UTILS_EXPORT int	GetCoeff_Offset (int n)
SOLVER_UTILS_EXPORT int	GetTotPoints ()
SOLVER_UTILS_EXPORT int	GetTotPoints (int n)
SOLVER_UTILS_EXPORT int	GetNpoints ()
SOLVER_UTILS_EXPORT int	GetSteps ()
SOLVER_UTILS_EXPORT NekDouble	GetTimeStep ()
SOLVER_UTILS_EXPORT void	CopyFromPhysField (const int i, Array< OneD, NekDouble > &output)
SOLVER_UTILS_EXPORT void	CopyToPhysField (const int i, Array< OneD, NekDouble > &output)
SOLVER_UTILS_EXPORT void	SetSteps (const int steps)
SOLVER_UTILS_EXPORT void	ZeroPhysFields ()
SOLVER_UTILS_EXPORT void	FwdTransFields ()
SOLVER_UTILS_EXPORT void	SetModifiedBasis (const bool modbasis)
SOLVER_UTILS_EXPORT int	GetCheckpointNumber ()
SOLVER_UTILS_EXPORT void	SetCheckpointNumber (int num)
SOLVER_UTILS_EXPORT int	GetCheckpointSteps ()
SOLVER_UTILS_EXPORT void	SetCheckpointSteps (int num)
SOLVER_UTILS_EXPORT void	SetTime (const NekDouble time)
SOLVER_UTILS_EXPORT void	SetInitialStep (const int step)
SOLVER_UTILS_EXPORT void	SetBoundaryConditions (NekDouble time)
	Evaluates the boundary conditions at the given time. More...
virtual SOLVER_UTILS_EXPORT bool	v_NegatedOp ()
	Virtual function to identify if operator is negated in DoSolve. More...

Static Public Member Functions
static EquationSystemSharedPtr	create (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &pGraph)
	Creates an instance of this class. More...

Static Public Attributes
static std::string	className
	Name of class. More...

Protected Member Functions
	UnsteadyReactionDiffusion (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &pGraph)
virtual void	v_InitObject ()
	Initialisation object for the unsteady reaction-diffusion problem. More...
void	DoOdeRhs (const Array< OneD, const Array< OneD, NekDouble > > &inarray, Array< OneD, Array< OneD, NekDouble > > &outarray, const NekDouble time)
	Compute the right-hand side for the unsteady reaction diffusion problem. More...
void	DoOdeProjection (const Array< OneD, const Array< OneD, NekDouble > > &inarray, Array< OneD, Array< OneD, NekDouble > > &outarray, const NekDouble time)
	Compute the projection for the unsteady diffusion problem. More...
void	DoImplicitSolve (const Array< OneD, const Array< OneD, NekDouble > > &inarray, Array< OneD, Array< OneD, NekDouble > > &outarray, NekDouble time, NekDouble lambda)
	Implicit solution of the unsteady diffusion problem. More...
Protected Member Functions inherited from Nektar::SolverUtils::UnsteadySystem
SOLVER_UTILS_EXPORT	UnsteadySystem (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &pGraph)
	Initialises UnsteadySystem class members. More...
SOLVER_UTILS_EXPORT NekDouble	MaxTimeStepEstimator ()
	Get the maximum timestep estimator for cfl control. More...
virtual SOLVER_UTILS_EXPORT void	v_DoSolve ()
	Solves an unsteady problem. More...
virtual SOLVER_UTILS_EXPORT void	v_DoInitialise ()
	Sets up initial conditions. More...
virtual SOLVER_UTILS_EXPORT void	v_GenerateSummary (SummaryList &s)
	Print a summary of time stepping parameters. More...
virtual SOLVER_UTILS_EXPORT void	v_AppendOutput1D (Array< OneD, Array< OneD, NekDouble >> &solution1D)
	Print the solution at each solution point in a txt file. More...
virtual SOLVER_UTILS_EXPORT NekDouble	v_GetTimeStep (const Array< OneD, const Array< OneD, NekDouble >> &inarray)
	Return the timestep to be used for the next step in the time-marching loop. More...
virtual SOLVER_UTILS_EXPORT bool	v_PreIntegrate (int step)
virtual SOLVER_UTILS_EXPORT bool	v_PostIntegrate (int step)
virtual SOLVER_UTILS_EXPORT bool	v_RequireFwdTrans ()
SOLVER_UTILS_EXPORT void	CheckForRestartTime (NekDouble &time, int &nchk)
SOLVER_UTILS_EXPORT void	SVVVarDiffCoeff (const Array< OneD, Array< OneD, NekDouble >> vel, StdRegions::VarCoeffMap &varCoeffMap)
	Evaluate the SVV diffusion coefficient according to Moura's paper where it should proportional to h time velocity. More...
Protected Member Functions inherited from Nektar::SolverUtils::EquationSystem
SOLVER_UTILS_EXPORT	EquationSystem (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &pGraph)
	Initialises EquationSystem class members. More...
virtual SOLVER_UTILS_EXPORT NekDouble	v_LinfError (unsigned int field, const Array< OneD, NekDouble > &exactsoln=NullNekDouble1DArray)
	Virtual function for the L_inf error computation between fields and a given exact solution. More...
virtual SOLVER_UTILS_EXPORT NekDouble	v_L2Error (unsigned int field, const Array< OneD, NekDouble > &exactsoln=NullNekDouble1DArray, bool Normalised=false)
	Virtual function for the L_2 error computation between fields and a given exact solution. More...
virtual SOLVER_UTILS_EXPORT void	v_TransCoeffToPhys ()
	Virtual function for transformation to physical space. More...
virtual SOLVER_UTILS_EXPORT void	v_TransPhysToCoeff ()
	Virtual function for transformation to coefficient space. More...
virtual SOLVER_UTILS_EXPORT void	v_SetInitialConditions (NekDouble initialtime=0.0, bool dumpInitialConditions=true, const int domain=0)
virtual SOLVER_UTILS_EXPORT void	v_EvaluateExactSolution (unsigned int field, Array< OneD, NekDouble > &outfield, const NekDouble time)
virtual SOLVER_UTILS_EXPORT void	v_Output (void)
virtual SOLVER_UTILS_EXPORT MultiRegions::ExpListSharedPtr	v_GetPressure (void)
virtual SOLVER_UTILS_EXPORT void	v_ExtraFldOutput (std::vector< Array< OneD, NekDouble > > &fieldcoeffs, std::vector< std::string > &variables)

Private Attributes
NekDouble	m_epsilon
std::vector< SolverUtils::ForcingSharedPtr >	m_forcing
	Forcing terms. More...

Friends
class	MemoryManager< UnsteadyReactionDiffusion >

Additional Inherited Members
Public Attributes inherited from Nektar::SolverUtils::UnsteadySystem
NekDouble	m_cflSafetyFactor
	CFL safety factor (comprise between 0 to 1). More...
Protected Types inherited from Nektar::SolverUtils::EquationSystem
enum	HomogeneousType { eHomogeneous1D, eHomogeneous2D, eHomogeneous3D, eNotHomogeneous }
	Parameter for homogeneous expansions. More...
Protected Attributes inherited from Nektar::SolverUtils::UnsteadySystem
int	m_infosteps
	Number of time steps between outputting status information. More...
int	m_abortSteps
	Number of steps between checks for abort conditions. More...
int	m_filtersInfosteps
	Number of time steps between outputting filters information. More...
int	m_nanSteps
LibUtilities::TimeIntegrationWrapperSharedPtr	m_intScheme
	Wrapper to the time integration scheme. More...
LibUtilities::TimeIntegrationSchemeOperators	m_ode
	The time integration scheme operators to use. More...
LibUtilities::TimeIntegrationSolutionSharedPtr	m_intSoln
NekDouble	m_epsilon
bool	m_explicitDiffusion
	Indicates if explicit or implicit treatment of diffusion is used. More...
bool	m_explicitAdvection
	Indicates if explicit or implicit treatment of advection is used. More...
bool	m_explicitReaction
	Indicates if explicit or implicit treatment of reaction is used. More...
bool	m_homoInitialFwd
	Flag to determine if simulation should start in homogeneous forward transformed state. More...
NekDouble	m_steadyStateTol
	Tolerance to which steady state should be evaluated at. More...
int	m_steadyStateSteps
	Check for steady state at step interval. More...
Array< OneD, Array< OneD, NekDouble > >	m_previousSolution
	Storage for previous solution for steady-state check. More...
std::ofstream	m_errFile
std::vector< int >	m_intVariables
std::vector< std::pair< std::string, FilterSharedPtr > >	m_filters
NekDouble	m_filterTimeWarning
	Number of time steps between outputting status information. More...
Protected Attributes inherited from Nektar::SolverUtils::EquationSystem
LibUtilities::CommSharedPtr	m_comm
	Communicator. More...
LibUtilities::SessionReaderSharedPtr	m_session
	The session reader. More...
std::map< std::string, SolverUtils::SessionFunctionSharedPtr >	m_sessionFunctions
	Map of known SessionFunctions. More...
LibUtilities::FieldIOSharedPtr	m_fld
	Field input/output. More...
Array< OneD, MultiRegions::ExpListSharedPtr >	m_fields
	Array holding all dependent variables. More...
SpatialDomains::BoundaryConditionsSharedPtr	m_boundaryConditions
	Pointer to boundary conditions object. More...
SpatialDomains::MeshGraphSharedPtr	m_graph
	Pointer to graph defining mesh. More...
std::string	m_sessionName
	Name of the session. More...
NekDouble	m_time
	Current time of simulation. More...
int	m_initialStep
	Number of the step where the simulation should begin. More...
NekDouble	m_fintime
	Finish time of the simulation. More...
NekDouble	m_timestep
	Time step size. More...
NekDouble	m_lambda
	Lambda constant in real system if one required. More...
NekDouble	m_checktime
	Time between checkpoints. More...
int	m_nchk
	Number of checkpoints written so far. More...
int	m_steps
	Number of steps to take. More...
int	m_checksteps
	Number of steps between checkpoints. More...
int	m_spacedim
	Spatial dimension (>= expansion dim). More...
int	m_expdim
	Expansion dimension. More...
bool	m_singleMode
	Flag to determine if single homogeneous mode is used. More...
bool	m_halfMode
	Flag to determine if half homogeneous mode is used. More...
bool	m_multipleModes
	Flag to determine if use multiple homogenenous modes are used. More...
bool	m_useFFT
	Flag to determine if FFT is used for homogeneous transform. More...
bool	m_homogen_dealiasing
	Flag to determine if dealiasing is used for homogeneous simulations. More...
bool	m_specHP_dealiasing
	Flag to determine if dealisising is usde for the Spectral/hp element discretisation. More...
enum MultiRegions::ProjectionType	m_projectionType
	Type of projection; e.g continuous or discontinuous. More...
Array< OneD, Array< OneD, NekDouble > >	m_traceNormals
	Array holding trace normals for DG simulations in the forwards direction. More...
Array< OneD, bool >	m_checkIfSystemSingular
	Flag to indicate if the fields should be checked for singularity. More...
LibUtilities::FieldMetaDataMap	m_fieldMetaDataMap
	Map to identify relevant solver info to dump in output fields. More...
int	m_NumQuadPointsError
	Number of Quadrature points used to work out the error. More...
enum HomogeneousType	m_HomogeneousType
NekDouble	m_LhomX
	physical length in X direction (if homogeneous) More...
NekDouble	m_LhomY
	physical length in Y direction (if homogeneous) More...
NekDouble	m_LhomZ
	physical length in Z direction (if homogeneous) More...
int	m_npointsX
	number of points in X direction (if homogeneous) More...
int	m_npointsY
	number of points in Y direction (if homogeneous) More...
int	m_npointsZ
	number of points in Z direction (if homogeneous) More...
int	m_HomoDirec
	number of homogenous directions More...
Static Protected Attributes inherited from Nektar::SolverUtils::EquationSystem
static std::string	equationSystemTypeLookupIds []

Detailed Description

Definition at line 46 of file UnsteadyReactionDiffusion.h.

Constructor & Destructor Documentation

~UnsteadyReactionDiffusion()

Nektar::UnsteadyReactionDiffusion::~UnsteadyReactionDiffusion ( )

virtual

Destructor.

Unsteady diffusion problem destructor.

Definition at line 86 of file UnsteadyReactionDiffusion.cpp.

{
}

UnsteadyReactionDiffusion()

Nektar::UnsteadyReactionDiffusion::UnsteadyReactionDiffusion ( const LibUtilities::SessionReaderSharedPtr &  pSession, const SpatialDomains::MeshGraphSharedPtr &  pGraph  )

protected

Definition at line 50 of file UnsteadyReactionDiffusion.cpp.

    : UnsteadySystem(pSession, pGraph)
{
}

Member Function Documentation

create()

static EquationSystemSharedPtr Nektar::UnsteadyReactionDiffusion::create ( const LibUtilities::SessionReaderSharedPtr &  pSession, const SpatialDomains::MeshGraphSharedPtr &  pGraph  )

inlinestatic

Creates an instance of this class.

Definition at line 52 of file UnsteadyReactionDiffusion.h.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), and CellMLToNektar.cellml_metadata::p.

    {
        EquationSystemSharedPtr p = MemoryManager<UnsteadyReactionDiffusion>
            ::AllocateSharedPtr(pSession, pGraph);
        p->InitObject();
        return p;
    }

DoImplicitSolve()

void Nektar::UnsteadyReactionDiffusion::DoImplicitSolve ( const Array< OneD, const Array< OneD, NekDouble > > &  inarray, Array< OneD, Array< OneD, NekDouble > > &  outarray, NekDouble  time, NekDouble  lambda  )

protected

Implicit solution of the unsteady diffusion problem.

Definition at line 145 of file UnsteadyReactionDiffusion.cpp.

References Nektar::StdRegions::eFactorLambda, m_epsilon, Nektar::SolverUtils::EquationSystem::m_fields, Nektar::NullFlagList, and Vmath::Smul().

Referenced by v_InitObject().

{
    boost::ignore_unused(time);

    StdRegions::ConstFactorMap factors;

    int nvariables = inarray.num_elements();
    int npoints    = m_fields[0]->GetNpoints();
    factors[StdRegions::eFactorLambda] = 1.0 / lambda / m_epsilon;

    // We solve ( \nabla^2 - HHlambda ) Y[i] = rhs [i] inarray = input:
    // \hat{rhs} -> output: \hat{Y} outarray = output: nabla^2 \hat{Y} where
    // \hat = modal coeffs
    for (int i = 0; i < nvariables; ++i)
    {
        // Multiply 1.0/timestep/lambda
        Vmath::Smul(npoints, -factors[StdRegions::eFactorLambda],
                    inarray[i], 1, outarray[i], 1);

        // Solve a system of equations with Helmholtz solver
        m_fields[i]->HelmSolve(
            outarray[i], m_fields[i]->UpdateCoeffs(), NullFlagList, factors);
        m_fields[i]->BwdTrans(m_fields[i]->GetCoeffs(), outarray[i]);
        m_fields[i]->SetPhysState(false);
    }
}

DoOdeProjection()

void Nektar::UnsteadyReactionDiffusion::DoOdeProjection ( const Array< OneD, const Array< OneD, NekDouble > > &  inarray, Array< OneD, Array< OneD, NekDouble > > &  outarray, const NekDouble  time  )

protected

Compute the projection for the unsteady diffusion problem.

Parameters

inarray	Given fields.
outarray	Calculated solution.
time	Time.

Definition at line 124 of file UnsteadyReactionDiffusion.cpp.

References Nektar::SolverUtils::EquationSystem::GetNcoeffs(), Nektar::SolverUtils::EquationSystem::m_fields, and Nektar::SolverUtils::EquationSystem::SetBoundaryConditions().

Referenced by v_InitObject().

{
    int i;
    int nvariables = inarray.num_elements();
    SetBoundaryConditions(time);

    Array<OneD, NekDouble> coeffs(m_fields[0]->GetNcoeffs());

    for(i = 0; i < nvariables; ++i)
    {
        m_fields[i]->FwdTrans(inarray[i], coeffs);
        m_fields[i]->BwdTrans_IterPerExp(coeffs, outarray[i]);
    }
}

DoOdeRhs()

void Nektar::UnsteadyReactionDiffusion::DoOdeRhs ( const Array< OneD, const Array< OneD, NekDouble > > &  inarray, Array< OneD, Array< OneD, NekDouble > > &  outarray, const NekDouble  time  )

protected

Compute the right-hand side for the unsteady reaction diffusion problem.

Parameters

inarray	Given fields.
outarray	Calculated solution.
time	Time.

Definition at line 98 of file UnsteadyReactionDiffusion.cpp.

References Nektar::SolverUtils::EquationSystem::m_fields, m_forcing, and Vmath::Zero().

Referenced by v_InitObject().

{
    // RHS should be set to zero.
    for (int i = 0; i < outarray.num_elements(); ++i)
    {
        Vmath::Zero(outarray[i].num_elements(), &outarray[i][0], 1);
    }

    // Add forcing terms for reaction.
    for (auto &x : m_forcing)
    {
        // set up non-linear terms
        x->Apply(m_fields, inarray, outarray, time);
    }
}

v_InitObject()

void Nektar::UnsteadyReactionDiffusion::v_InitObject ( )

protectedvirtual

Initialisation object for the unsteady reaction-diffusion problem.

Reimplemented from Nektar::SolverUtils::UnsteadySystem.

Definition at line 60 of file UnsteadyReactionDiffusion.cpp.

References ASSERTL0, Nektar::LibUtilities::TimeIntegrationSchemeOperators::DefineImplicitSolve(), Nektar::LibUtilities::TimeIntegrationSchemeOperators::DefineOdeRhs(), Nektar::LibUtilities::TimeIntegrationSchemeOperators::DefineProjection(), DoImplicitSolve(), DoOdeProjection(), DoOdeRhs(), Nektar::MultiRegions::eGalerkin, Nektar::LibUtilities::eIMEX, Nektar::SolverUtils::Forcing::Load(), m_epsilon, Nektar::SolverUtils::EquationSystem::m_fields, m_forcing, Nektar::SolverUtils::UnsteadySystem::m_intScheme, Nektar::SolverUtils::UnsteadySystem::m_ode, Nektar::SolverUtils::EquationSystem::m_projectionType, Nektar::SolverUtils::EquationSystem::m_session, and Nektar::SolverUtils::UnsteadySystem::v_InitObject().

{
    UnsteadySystem::v_InitObject();

    ASSERTL0(m_intScheme->GetIntegrationSchemeType() == LibUtilities::eIMEX,
             "Reaction-diffusion requires an implicit-explicit timestepping"
             " (e.g. IMEXOrder2)");
    ASSERTL0(m_projectionType == MultiRegions::eGalerkin,
             "Reaction-diffusion requires use of continuous Galerkin"
             "projection.");

    // Load diffusion parameter
    m_session->LoadParameter("epsilon", m_epsilon,  0.0);

    // Forcing terms
    m_forcing = SolverUtils::Forcing::Load(m_session, shared_from_this(),
                                           m_fields, m_fields.num_elements());

    m_ode.DefineOdeRhs       (&UnsteadyReactionDiffusion::DoOdeRhs,        this);
    m_ode.DefineProjection   (&UnsteadyReactionDiffusion::DoOdeProjection, this);
    m_ode.DefineImplicitSolve(&UnsteadyReactionDiffusion::DoImplicitSolve, this);
}

Friends And Related Function Documentation

MemoryManager< UnsteadyReactionDiffusion >

friend class MemoryManager< UnsteadyReactionDiffusion >

friend

Definition at line 49 of file UnsteadyReactionDiffusion.h.

Member Data Documentation

className

string Nektar::UnsteadyReactionDiffusion::className

static

Initial value:

= GetEquationSystemFactory().
    RegisterCreatorFunction("UnsteadyReactionDiffusion",
                            UnsteadyReactionDiffusion::create)

Name of class.

Definition at line 62 of file UnsteadyReactionDiffusion.h.

m_epsilon

NekDouble Nektar::UnsteadyReactionDiffusion::m_epsilon

private

Definition at line 89 of file UnsteadyReactionDiffusion.h.

Referenced by DoImplicitSolve(), and v_InitObject().

m_forcing

std::vector<SolverUtils::ForcingSharedPtr> Nektar::UnsteadyReactionDiffusion::m_forcing

private

Forcing terms.

Definition at line 91 of file UnsteadyReactionDiffusion.h.

Referenced by DoOdeRhs(), and v_InitObject().